ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2012
Development and application of SINE-based markers for genotyping of potato varieties.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed, 33 citations in OpenAlex.
- Repeatome landscapes and cytogenetics of hortensias provide a framework to trace Hydrangea evolution and domestication.Annals of botany · 2025Article
- Population structure and genetic diversity of Mi pigs based on SINE-RIPs.Frontiers in veterinary science · 2025Article
- Genetic marker: a genome mapping tool to decode genetic diversity of livestock animals.Frontiers in genetics · 2024Review
- Article
- Genetic Evaluation and Population Structure of Jiangsu Native Pigs in China Revealed by SINE Insertion Polymorphisms.Animals : an open access journal from MDPI · 2022Article
- A Guide to Using FASTPCR Software for PCR, In Silico PCR, and Oligonucleotide Analysis.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Application of Transcranial Direct Current Stimulation in Neurorehabilitation: The Modulatory Effect of Sleep.Frontiers in neurology · 2016Review
- The Solanum commersonii Genome Sequence Provides Insights into Adaptation to Stress Conditions and Genome Evolution of Wild Potato Relatives.The Plant cell · 2015Article
- Advances in plant gene-targeted and functional markers: a review.Plant methods · 2013Article
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Potato variety discrimination based on morphological traits is laborious and influenced by the environment, while currently applied molecular markers are either expensive or time-consuming in development or application. SINEs, short interspersed nuclear elements, are retrotransposons with a high copy number in plant genomes representing a potential source for new markers. We developed a marker system for potato genotyping, designated inter-SINE amplified polymorphism (ISAP). Based on nine potato SINE families recently characterized (Wenke et al. in Plant Cell 23:3117-3128, 2011), we designed species-specific SINE primers. From the resulting 153 primer combinations, highly informative primer sets were selected for potato variety analysis regarding number of bands, quality of the banding pattern, and the degree of polymorphism. Fragments representing ISAPs can be separated by conventional agarose gel electrophoresis; however, automation with a capillary sequencer is feasible. Two selected SINE families, SolS-IIIa and SolS-IV, were shown to be highly but differently amplified in Solanaceae, Solaneae tribe, including wild and cultivated potatoes, tomato, and eggplant. Fluorescent in situ hybridization demonstrated the genome-wide distribution of SolS-IIIa and SolS-IV along potato chromosomes, which is the basis for genotype discrimination and differentiation of somaclonal variants by ISAP markers.
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